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IDH1 isocitrate dehydrogenase (NADP(+)) 1 [ Homo sapiens (human) ]

Gene ID: 3417, updated on 25-Feb-2020

Summary

Official Symbol
IDH1provided by HGNC
Official Full Name
isocitrate dehydrogenase (NADP(+)) 1provided by HGNC
Primary source
HGNC:HGNC:5382
See related
Ensembl:ENSG00000138413 MIM:147700
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
IDH; IDP; IDCD; IDPC; PICD; HEL-216; HEL-S-26
Summary
Isocitrate dehydrogenases catalyze the oxidative decarboxylation of isocitrate to 2-oxoglutarate. These enzymes belong to two distinct subclasses, one of which utilizes NAD(+) as the electron acceptor and the other NADP(+). Five isocitrate dehydrogenases have been reported: three NAD(+)-dependent isocitrate dehydrogenases, which localize to the mitochondrial matrix, and two NADP(+)-dependent isocitrate dehydrogenases, one of which is mitochondrial and the other predominantly cytosolic. Each NADP(+)-dependent isozyme is a homodimer. The protein encoded by this gene is the NADP(+)-dependent isocitrate dehydrogenase found in the cytoplasm and peroxisomes. It contains the PTS-1 peroxisomal targeting signal sequence. The presence of this enzyme in peroxisomes suggests roles in the regeneration of NADPH for intraperoxisomal reductions, such as the conversion of 2, 4-dienoyl-CoAs to 3-enoyl-CoAs, as well as in peroxisomal reactions that consume 2-oxoglutarate, namely the alpha-hydroxylation of phytanic acid. The cytoplasmic enzyme serves a significant role in cytoplasmic NADPH production. Alternatively spliced transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Sep 2013]
Expression
Ubiquitous expression in adrenal (RPKM 116.0), liver (RPKM 110.2) and 23 other tissues See more
Orthologs

Genomic context

See IDH1 in Genome Data Viewer
Location:
2q34
Exon count:
12
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (208236227..208255143, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (209100951..209120478, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein SA pseudogene 27 Neighboring gene tumor protein, translationally-controlled 1 pseudogene 2 Neighboring gene IDH1 antisense RNA 1 Neighboring gene phosphoinositide kinase, FYVE-type zinc finger containing Neighboring gene myosin light chain 6B pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of isocitrate dehydrogenase 1 (NADP+), soluble (IDH1) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed
Knockdown of isocitrate dehydrogenase 1 (NADP+), soluble (IDH1) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NAD binding IEA
Inferred from Electronic Annotation
more info
 
NADP binding IEA
Inferred from Electronic Annotation
more info
 
cadherin binding HDA PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
isocitrate dehydrogenase (NADP+) activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
isocitrate dehydrogenase (NADP+) activity IDA
Inferred from Direct Assay
more info
PubMed 
magnesium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
2-oxoglutarate metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
2-oxoglutarate metabolic process TAS
Traceable Author Statement
more info
 
NADP metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NADPH regeneration TAS
Traceable Author Statement
more info
 
female gonad development IEA
Inferred from Electronic Annotation
more info
 
glutathione metabolic process IEA
Inferred from Electronic Annotation
more info
 
glyoxylate cycle IEA
Inferred from Electronic Annotation
more info
 
isocitrate metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
isocitrate metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
protein targeting to peroxisome TAS
Traceable Author Statement
more info
 
regulation of phospholipid biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
regulation of phospholipid catabolic process IEA
Inferred from Electronic Annotation
more info
 
response to oxidative stress IEA
Inferred from Electronic Annotation
more info
 
response to steroid hormone IEA
Inferred from Electronic Annotation
more info
 
tricarboxylic acid cycle IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
ficolin-1-rich granule lumen TAS
Traceable Author Statement
more info
 
mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peroxisomal matrix TAS
Traceable Author Statement
more info
 
peroxisome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peroxisome IDA
Inferred from Direct Assay
more info
PubMed 
secretory granule lumen TAS
Traceable Author Statement
more info
 
tertiary granule lumen TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
isocitrate dehydrogenase [NADP] cytoplasmic
Names
NADP(+)-specific ICDH
NADP-dependent isocitrate dehydrogenase, cytosolic
NADP-dependent isocitrate dehydrogenase, peroxisomal
epididymis luminal protein 216
epididymis secretory protein Li 26
epididymis secretory sperm binding protein
isocitrate dehydrogenase (NADP(+)) 1, cytosolic
isocitrate dehydrogenase 1 (NADP+), soluble
oxalosuccinate decarboxylase
NP_001269315.1
NP_001269316.1
NP_005887.2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_023319.2 RefSeqGene

    Range
    15932..34848
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_610

mRNA and Protein(s)

  1. NM_001282386.1NP_001269315.1  isocitrate dehydrogenase [NADP] cytoplasmic

    See identical proteins and their annotated locations for NP_001269315.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate 5' UTR exon, compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    BC021046, DA707595, N21575
    Consensus CDS
    CCDS2381.1
    UniProtKB/Swiss-Prot
    O75874
    UniProtKB/TrEMBL
    V9HWJ2
    Related
    ENSP00000410513.1, ENST00000446179.5
    Conserved Domains (1) summary
    PTZ00435
    Location:1411
    PTZ00435; isocitrate dehydrogenase; Provisional
  2. NM_001282387.1NP_001269316.1  isocitrate dehydrogenase [NADP] cytoplasmic

    See identical proteins and their annotated locations for NP_001269316.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has an alternate 5' UTR exon, compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    BC012846, DR158630, N21575
    Consensus CDS
    CCDS2381.1
    UniProtKB/Swiss-Prot
    O75874
    UniProtKB/TrEMBL
    V9HWJ2
    Related
    ENSP00000390265.1, ENST00000415913.5
    Conserved Domains (1) summary
    PTZ00435
    Location:1411
    PTZ00435; isocitrate dehydrogenase; Provisional
  3. NM_005896.3NP_005887.2  isocitrate dehydrogenase [NADP] cytoplasmic

    See identical proteins and their annotated locations for NP_005887.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) and variants 2 and 3 encode the same protein.
    Source sequence(s)
    BC021046, DA728868, N21575
    Consensus CDS
    CCDS2381.1
    UniProtKB/Swiss-Prot
    O75874
    UniProtKB/TrEMBL
    V9HWJ2
    Related
    ENSP00000260985.2
    Conserved Domains (1) summary
    PTZ00435
    Location:1411
    PTZ00435; isocitrate dehydrogenase; Provisional

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    208236227..208255143 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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